Differential m6A methylation between parental and temozolomide resistant U87 MG cells
DNA methylation · human · 16 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Homo sapiens (human)
- Topic
- GlioblastomaThis series is part of our curated briefing on it.
- Samples
- 16 samples: 16 samples, each with a distinct title — no replicated groupsGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE306560_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Look for beta-value tables or raw IDAT files among the supplementary files.
Also filed as BioProject PRJNA1311119 and SRA study SRP612772. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 16 sample titles: 16 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM9203366 U87 MG rep 1, input
- GSM9203367 U87 MG rep 2, input
- GSM9203368 U87 MG rep 3, input
- GSM9203369 U87-R rep 1, input
- GSM9203370 U87-R rep 2, input
- GSM9203371 U87-R rep 3, input
- GSM9203372 U87-R, STM2457, rep 1, input
- GSM9203373 U87-R, STM2457, rep 2, input
- GSM9203374 U87 MG rep 1, m6A eCLIP
- GSM9203375 U87 MG rep 2, , m6A eCLIP
- GSM9203376 U87 MG rep 3, m6A eCLIP
- GSM9203377 U87-R rep 1, m6A eCLIP
- GSM9203378 U87-R rep 2, m6A eCLIP
- GSM9203379 U87-R rep 3, m6A eCLIP
- GSM9203380 U87-R, STM2457, rep 1, m6A eCLIP
- GSM9203381 U87-R, STM2457, rep 2, m6A eCLIP
- GSE122283 H3K27ac ChIP-seq in GBM cell lines SF763 PTEN-KO and U87 4 samples same disease briefing · shares u87
- GSE11233 The Cancer Genome Atlas (TCGA) Consortium Integrated DNA Methylation Analysis 8 samples same disease briefing · shares methylation
- GSE107560 Ivy Glioblastoma Atlas Project 305 samples same disease briefing
- GSE13041 Gene expression analysis of glioblastomas identifies the major molecular basis for the prognostic benefit of younger age 267 samples same disease briefing
- GSE112650 SOX4/11 Enhances NGN2 Reprogramming Glioblastoma Cells into Neuron Cells by Modulating RhoA and CDC42/RAC1 Pathway Activity 30 samples same disease briefing
- GSE112648 SOXC factors as suppressors modulate Rho activity to promote neuronal reprogramming of human glioblastoma cells 18 samples same disease briefing
- GSE112645 SOXC factors as suppressors modulate Rho activity to promote neuronal reprogramming of human glioblastoma cells 12 samples same disease briefing
- GSE10878 Integrative Genome-wide Analysis of Glioblastoma. 60 samples same disease briefing
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.